HHsearch alignment for GI: 254780424 and conserved domain: pfam04545
>pfam04545 Sigma70_r4 Sigma-70, region 4. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.
Probab=90.50 E-value=0.29 Score=28.32 Aligned_cols=34 Identities=32% Similarity=0.541 Sum_probs=29.2
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 9999999981997999999872469999998528
Q gi|254780424|r 17 KRIRLRRMILGMSQEKLGECLGITFQQVQKYEKG 50 (144)
Q Consensus 17 ~rIr~~R~~~glTQ~eLA~~lGvs~s~is~~E~G 50 (144)
T Consensus 10 r~ii~l~y~~~~t~~EIA~~lgis~~~V~~~~~r 43 (50)
T pfam04545 10 REVLVLRFGEGLTLEEIGERLGISRERVRQIEKR 43 (50)
T ss_pred HHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHHHH
T ss_conf 9999987068824999999989799999999999